Evidence map›Paper›PMID 31841800›Full record

ArticleDNA repair2020

Biochemical reconstitution and genetic characterization of the major oxidative damage base excision DNA repair pathway in Thermococcus kodakarensis.

Alexandra M Gehring, Kelly M Zatopek, Brett W Burkhart, Vladimir Potapov, Thomas J Santangelo, Andrew F Gardner

Abstract read
In one paragraph

Article in DNA repair, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed.

  1. Review
  2. Article
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Alexandra M GehringNew England Biolabs, Inc., Ipswich, MA 01938, United States.
Kelly M ZatopekNew England Biolabs, Inc., Ipswich, MA 01938, United States.
Brett W BurkhartDepartment of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, CO 80523, United States.
Vladimir PotapovNew England Biolabs, Inc., Ipswich, MA 01938, United States.
Thomas J SantangeloDepartment of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, CO 80523, United States.
Andrew F GardnerNew England Biolabs, Inc., Ipswich, MA 01938, United States. Electronic address: gardner@neb.com.

Funding

Mechanisms of Archaeal Transcription Termination - Administrative SupplementR01GM100329 · NIGMS · OHIO STATE UNIVERSITY · PI SANTANGELO, THOMAS JAMES · 2012 to 2021
$2.5M
Regulation of Archaeal TranscriptionR35GM143963 · NIGMS · COLORADO STATE UNIVERSITY · PI Thomas James Santangelo · 2022 to 2026
$1.8M
NIGMS NIH HHS R01 GM100329NIGMS NIH HHS R35 GM143963
6 · The paper itself

Abstract

Reactive oxygen species drive the oxidation of guanine to 8-oxoguanine (8oxoG), which threatens genome integrity. The repair of 8oxoG is carried out by base excision repair enzymes in Bacteria and Eukarya, however, little is known about archaeal 8oxoG repair. This study identifies a member of the Ogg-subfamily archaeal GO glycosylase (AGOG) in Thermococcus kodakarensis, an anaerobic, hyperthermophilic archaeon, and delineates its mechanism, kinetics, and substrate specificity. TkoAGOG is the major 8oxoG glycosylase in T. kodakarensis, but is non-essential. In addition to TkoAGOG, the major apurinic/apyrimidinic (AP) endonuclease (TkoEndoIV) required for archaeal base excision repair and cell viability was identified and characterized. Enzymes required for the archaeal oxidative damage base excision repair pathway were identified and the complete pathway was reconstituted. This study illustrates the conservation of oxidative damage repair across all Domains of life.

Indexed as

DNA RepairArchaeal ProteinsDNA DamageDNA GlycosylasesGuanineOxidative StressThermococcus7,8-dihydro-8-oxoguanineArchaeal ProteinsDNA GlycosylasesGuanine8oxo-guanine (8-oxoG)AP endonucleaseArchaeaBase excision repair (BER)DNA glycosylaseDNA polymeraseDNA repairGeneticsNucleic acid enzymology

Identifiers

PMID31841800
PMCPMC8061334

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.